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At least 631 records · Page 35

Metabolic Engineering of Oleaginous Yeasts for Production of Fuels and Chemicals

Oleaginous yeasts have been increasingly explored for production of chemicals and fuels via metabolic engineering. Particularly, there is a growing interest in using oleaginous yeasts for the synthesis of lipid-related products due to their high lipogenesis capability, robustness, and ability to utilize a variety of substrates. Most of the metabolic engineering studies in oleaginous yeasts focused on Yarrowia that already has plenty of genetic engineering tools. However, recent advances in systems biology and synthetic biology have provided new strategies and tools to engineer those oleaginous yeasts that have naturally high lipid accumulation but lack genetic tools, such as Rhodosporidium, Trichosporon, and Lipomyces. This review highlights recent accomplishments in metabolic engineering of oleaginous yeasts and recent advances in the development of genetic engineering tools in oleaginous yeasts within the last 3 years.

09 BIOMASS FUELS↗

Engineering custom morpho- and chemotypes of Populus for sustainable production of biofuels, bioproducts, and biomaterials

Humans have been modifying plant traits for thousands of years, first through selection (i.e., domestication) then modern breeding, and in the last 30 years, through biotechnology. These modifications have resulted in increased yield, more efficient agronomic practices, and enhanced quality traits. Precision knowledge of gene regulation and function through high-resolution single-cell omics technologies, coupled with the ability to engineer plant genomes at the DNA sequence, chromatin accessibility, and gene expression levels, can enable engineering of complex and complementary traits at the biosystem level. Populus spp., the primary genetic model system for woody perennials, are among the fastest growing trees in temperate zones and are important for both carbon sequestration and global carbon cycling. Ample genomic and transcriptomic resources for poplar are available including emerging single-cell omics datasets. To expand use of poplar outside of valorization of woody biomass, chassis with novel morphotypes in which stem branching and tree height are modified can be fabricated thereby leading to trees with altered leaf to wood ratios. These morphotypes can then be engineered into customized chemotypes that produce high value biofuels, bioproducts, and biomaterials not only in specific organs but also in a cell-type-specific manner. For example, the recent discovery of triterpene production in poplar leaf trichomes can be exploited using cell-type specific regulatory sequences to synthesize high value terpenes such as the jet fuel precursor bisabolene specifically in the trichomes. By spatially and temporally controlling expression, not only can pools of abundant precursors be exploited but engineered molecules can be sequestered in discrete cell structures in the leaf. The structural diversity of the hemicellulose xylan is a barrier to fully utilizing lignocellulose in biomaterial production and by leveraging cell-type-specific omics data, cell wall composition can be modified in a tailored and targeted specific manner to generate poplar wood with novel chemical features that are amenable for processing or advanced manufacturing. Precision engineering poplar as a multi-purpose sustainable feedstock highlights how genome engineering can be used to re-imagine a crop species.

09 BIOMASS FUELS↗

Investigation of the Impact of Fuel Properties on Particulate Number Emission of a Modern Gasoline Direct Injection Engine

Gasoline Direct Injection (GDI) has become the preferred technology for spark-ignition engines resulting in greater specific power output and lower fuel consumption, and consequently reduction in CO2 emission. However, GDI engines face a substantial challenge in meeting new and future emission limits, especially the stringent particle number (PN) emissions recently introduced in Europe and China. Studies have shown that the fuel used by a vehicle has a significant impact on engine out emissions. In this study, nine fuels with varying chemical composition and physical properties were tested on a modern turbo-charged side-mounted GDI engine with design changes to reduce particulate emissions. The fuels tested included four fuels meeting US certification requirements; two fuels meeting European certification requirements; and one fuel meeting China 6 certification requirements being proposed at the time of this work. Two risk safeguard fuels (RSG), representing the properties of worst case market fuels in Europe and China, were also included. The particle number concentration of the solid particulates was measured in the engine-out exhaust flow at steady state engine operations with load and speed sweeps, and semi-transient load steps. The test results showed a factor of 6 PN emission difference among all certification fuels tested. Combined with detailed fuel analyses, this study evaluated important factors (such as oxygenates, carbon chain length and thermo-physical properties) that cause PN emissions which were not included in PMI index. A linear regression was performed to develop a PN predictive model which showed improved fitting quality than using PMI.

33 ADVANCED PROPULSION SYSTEMS↗

Fundamental Advancements in Pre-Chamber Spark Ignition and Emissions Control for Natural Gas Engines

Argonne National Laboratory, the National Renewable Energy Laboratory, Oak Ridge National Laboratory, and Sandia National Laboratories collaborated on research to address barriers for natural gas engine efficiency. This research project focuses on early stage research focusing on pre-chamber spark-ignition (PCSI) to achieve diesel-like efficiency in medium- and heavy-duty natural gas engines by extending the lean dilution limit and/or exhaust gas recirculation (EGR) dilution limit, as well as shortening burn duration, with integrated aftertreatment. This project integrates experimental and simulation based tasks to address four key barriers to market penetration of PCSI for medium- and heavy-duty natural gas engines. These include Inadequate science base and simulation tools to describe/predict the fluid-mechanical and chemical-kinetic processes governing PCSI to enable engineers in industry to optimize designs for efficiency, noise, reliability, pollutant formation, emissions control integration, and drivability; limited ability to extend EGR and/or lean dilution limits at higher loads; increased propensity for PCSI hot-spot pre-ignition at high loads relative to spark ignition; and ineffective methane catalysts for the high engine-out unburned fuel concentrations coupled with low exhaust temperatures (<<400 degrees C) of high efficiency engines.

33 ADVANCED PROPULSION SYSTEMS↗

Conjugation-based genome engineering enables rapid prototyping and bioproduction in non-model bacteria

Abstract Non-model bacteria offer unique metabolic capabilities for sustainable bioproduction, yet their limited genetic accessibility hinders systematic strain development. Here we present conjugation-based serine recombinase-assisted genome engineering (cSAGE), a broad-host-range platform that enables predictable, iterative genomic integration in transformation-resistant bacteria. cSAGE combines conjugative DNA delivery, standardized low-copy vectors, orthogonal recombinases, and modular genetic parts to support rapid pathway assembly and cross-host benchmarking. Using purple nonsulfur bacteria as a testbed, we integrate promoter engineering, multi-payload genome modification, and genome-scale metabolic modeling to empirically evaluate host-dependent pathway performance. Applying this workflow, we identify strain-specific differences in photosynthetic conversion of lignin-derived p -coumarate to the thermoplastic precursor p -vinylphenol. By enabling genome engineering and functional comparison across diverse bacteria using a single plasmid system, cSAGE provides a general framework for non-model strain prototyping and biotransformation discovery.

Guzman, Michael S. [Department of Chemical Enginee↗

Performance and Emissions of an SI Engine Fueled With DME-Propane Blends

Dimethyl Ether (DME) is an alternative fuel that can be produced renewably and has the potential for lower CO and NOx emissions than conventional petroleum-based fuels. Blending DME with another gaseous fuel such as propane, which has a lower knock tendency than gasoline, can allow this fuel to be leveraged on SI engines. In this study, the use of DME-propane blends on a spark ignition (SI) engine was studied via computer simulations in order to understand the impact on engine performance and emissions and to identify the knock limitations of using such fuel blends. A 2L Hyundai SI engine was modeled in GT Power and the model was validated by comparing it with computational fluid dynamics (CFD) simulation results. Starting from pure propane, DME was added incrementally until knock was observed in the engine. Results indicate that it is feasible to run propane with DME percentages up to 35% before severe knock impacts were observed. The BTE was higher, but the BSFC also increased for DME-propane blends as compared to gasoline. Here, an increase in NOx emissions was detected along with a significant decrease in CO emissions. CO 2 emissions declined for propane as compared to gasoline but increased with the addition of DME.

alternative fuels↗

A self-referential HOWTO on release engineering

Release engineering is a fundamental part of the software development cycle: it is the point at which quality control is exercised and bug fixes are integrated. The way in which software is released also gives the end user her first experience of a software package, while in scientific computing release engineering can guarantee reproducibility. For these reasons and others, the release process is a good indicator of the maturity and organization of a development team. Software teams often do not put in place a release process at the beginning. This is unfortunate because the team does not have early and continuous execution of test suites, and it does not exercise the software in the same conditions as the end users. I describe an approach to release engineering based on the software tools developed and used by the GNU project, together with several specific proposals related to packaging and distribution. I do this in a step-by-step manner, demonstrating how this very paper is written and built using proper release engineering methods. Because many aspects of release engineering are not exercised in the building of the paper, the accompanying software repository also contains examples of software libraries.

42 ENGINEERING↗

Cyber-Informed Engineering (CIE) Workbook: End-of-Train (EoT) / Head-of-Train (HoT) Communications

This workbook presents a vulnerability (CVE-2025-1727 ) found in train applications and guides a digital risk assessment and mitigation analysis and application of Cyber-Informed Engineering principles to mitigate the potential consequences and ultimately the hazard through the engineering discipline because of exploiting this vulnerability. Workshop participants are encouraged to use the workbook to capture insights and lessons learned. The workbook guides the participant to: • Understand the HE communication vulnerability • Map digital threats to physical consequences • Use bowtie analysis to illustrate both “security” and “engineering” barriers • Apply CIE principles to ensure that even if communications are compromised, the physical engineered system still behaves safely. • Produce an actionable set of engineered and infosec controls for implementation

42 - ENGINEERING↗

The Need for Cyber-Informed Engineering Expertise for Nuclear Research Reactors

Engineering disciplines may not currently understand or fully embrace cyber security aspects as they apply towards analysis, design, operation, and maintenance of nuclear research reactors. Research reactors include a wide range of diverse co-located facilities and designs necessary to meet specific operational research objectives. Because of the nature of research reactors (reduced thermal energy and fission product inventory), hazards and risks may not have received the same scrutiny as normally associated with power reactors. Similarly, security may not have been emphasized either. However, the lack of sound cybersecurity defenses may lead to both safety and security impacts. Risk management methodologies may not contain the foundational assumptions required to address the intelligent adversary’s capabilities in malevolent cyber attacks. Although most research reactors are old and may not have the same digital footprint as newer facilities, any digital instrument and control function must be considered as a potential attack platform that can lead to sabotage or theft of nuclear material, especially for some research reactors that store highly enriched uranium. This paper will provide a discussion about the need for cyber-informed engineering practices that include the entire engineering lifecycle. Cyber-informed engineering as referenced in this paper is the inclusion of cybersecurity aspects into the engineering process. A discussion will consider several attributes of this process evaluating the long-term goal of developing additional cyber safety basis analysis and trust principles. With a culture of free information sharing exchanges, and potentially a lack of security expertise, new risk analysis and design methodologies need to be developed to address this rapidly evolving (cyber) threatscape.

CCE↗

Integrating narratives into decision making for complex systems engineering design issues

Abstract Engineering decision making and design requires collaboration between groups from different disciplines, each with different tools, vocabulary, and concerns. Traditional engineering decision‐making tools are generally based on understanding the decision makers’ values, modeling uncertainty with probability, and selecting the alternative that maximizes utility. This rational approach to decision making may not be well understood or used by many stakeholders involved in the engineering design process. Constructing narratives, a basic means of human communication, may aid in engineering communication and comprehension and help with decision making. Narratives represent events by means of a story and usually include characters or agents who cause events and to whom events happen. This paper recommends three methods for how the use of narrative can be applied to the area of engineering decision making. These methods include connecting the decision maker to the analysis, creating narrative simulations for training decision makers, and fostering consensus in problems with multiple stakeholders. An illustrative example of designing a better cookstove for the developing world demonstrates the role that understanding narratives of various stakeholders can play for accomplishing complex systems engineering.

MacKenzie, Cameron A.↗

Enhanced Magnetic Levitation and Guidance Force in MgB{sub 2} Bulks by Synthetic Engine Oil Immersion

We have used ‘Synthetic engine oil’ as a rich easily accessible carbon source and investigated the effect of engine oil on the microstructure, critical current density (J{sub c}), vertical levitation force (F{sub z}) and guidance force (F{sub x}) properties of MgB{sub 2} superconductor. The polycrystalline disk-shaped MgB{sub 2} bulk samples have been prepared using two-step solid-state reaction process. After the first heating process, MgB{sub 2} bulk samples immersed in the engine oil for different durations (30, 120, 300 and 1440 min). XRD analysis indicated the decreasing of lattice parameters of samples and confirmed C substitution in boron sites. Vertical levitation and guidance force measurements were carried out with both Field-cooling (FC) and zero-field-cooling (ZFC) regimes at different temperatures of 20, 24 and 28 K. It was found that engine oil addition slightly increases the levitation and guidance force properties. The F{sub z} values were obtained as 11.17 and 11.58 N for pure and MgB{sub 2} sample immersed for 30 min at 20 K in ZFC regime. In addition, the MgB{sub 2} sample immersed for 300 min in engine oil showed the highest J{sub c} value of 5.3×10{sup 4} A cm{sup − 2} at 15 K and self-field and showed the highest guidance force value of 4.14 N at 20 K. These finding suggest that synthetic engine oil is a cost-effective and promising method to improve the levitation and guidance force performance as well as the critical current density of MgB{sub 2} bulk superconductor.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

The contribution of lubricant to the formation of particulate matter with reactivity controlled compression ignition in light-duty diesel engines

Reactivity controlled compression ignition (RCCI) has been shown in single- and multi-cylinder engine research to achieve high thermal efficiencies with ultra-low NO X and soot emissions. The nature of the particulate matter (PM) produced by RCCI operation has been shown in recent research to be different than that of conventional diesel combustion and even diesel low-temperature combustion. Previous research has shown that the PM from RCCI operation contains a large amount of organic material that is volatile and semi-volatile. However, it is unclear if the organic compounds are stemming from fuel or lubricant oil. The PM emissions from dual-fuel RCCI were investigated in this study using two engine platforms, with an emphasis on the potential contribution of lubricant. Both engine platforms used the same base General Motors (GM) 1.9-L diesel engine geometry. The first study was conducted on a single-cylinder research engine with primary reference fuels (PRFs), n-heptane, and iso-octane. The second study was conducted on a four-cylinder GM 1.9-L ZDTH engine which was modified with a port fuel injection (PFI) system while maintaining the stock direct injection fuel system. Multi-cylinder RCCI experiments were run with PFI gasoline and direct injection of 2-ethylhexyl nitrate (EHN) mixed with gasoline at 5 % EHN by volume. In addition, comparison cases of conventional diesel combustion (CDC) were performed. Particulate size distributions were measured, and PM filter samples were collected for analysis of lube oil components. Triplicate PM filter samples (i.e., three individual filter samples) for both gas chromatography-mass spectroscopy (GC-MS; organic) analysis and X-ray fluorescence (XRF; metals) were obtained at each operating point and queued for analysis of both organic species and lubricant metals. Here, the results give a clear indication that lubricants do not contribute significantly to the formation of RCCI PM.

33 ADVANCED PROPULSION SYSTEMS↗

Reactivity of novel high-performance fuels on commercial three-way catalysts for control of emissions from spark-ignition engines

The Department of Energy “Co-Optimization of Fuels and Engines” initiative aims to simultaneously develop novel high-performance fuels with advanced engine designs to reduce petroleum consumption. To achieve commercialization, advanced engines running on alternative fuels still must meet emissions regulations. Warm three-way catalysts (TWC) are very effective at meeting the stringent emissions regulations on pollutants such as nitrogen oxides (NOx), non-methane organic gases (NMOG) and carbon monoxide (CO) from gasoline-fueled spark-ignition (SI) engines operating under stoichiometric conditions; thus, most SI engine emissions occur during cold-start, when the TWC has not yet achieved light-off. In the current study, the light-off behavior of novel high-performance fuel candidates has been investigated on a hydrothermally-aged commercial TWC using a synthetic engine-exhaust flow reactor system according to industry guidelines. Over 30 potential fuel components were examined in this study, including alkanes, alkenes, alcohols, ketones, esters, aromatic ethers, and non-oxygenated aromatic hydrocarbons. Short-chain acyclic oxygenates, including alcohols, ketones, and esters, tended to light off at relatively low temperatures, while alkenes, aromatics, and cyclic oxygenates tended to light off at relatively high temperatures. The light-off behavior of alkanes and alkenes depended strongly on their size and structure. In terms of the influence on CO light-off on the TWC, the fuels fell into two distinct categories: (i) non-inhibiting species including C 2 -C 3 alcohols, alkanes, acyclic ketones, and esters; and (ii) inhibiting species including alkenes, aromatic hydrocarbons, cyclic oxygenates, and C 4 alcohols.

33 ADVANCED PROPULSION SYSTEMS↗

Protein design for pathway engineering

Design and construction of biochemical pathways has increased the complexity of biosynthetically-produced compounds when compared to single enzyme biocatalysis. However, the coordination of multiple enzymes can introduce a complicated set of obstacles to overcome in order to achieve a high titer and yield of the desired compound. Metabolic engineering has made great strides in developing tools to optimize the flux through a target pathway, but the inherent characteristics of a particular enzyme within the pathway can still limit the productivity. Thus, judicious protein design is critical for metabolic and pathway engineering. This review will describe various strategies and examples of applying protein design to pathway engineering to optimize the flux through the pathway. The proteins can be engineered for altered substrate specificity/selectivity, increased catalytic activity, reduced mass transfer limitations through specific protein localization, and reduced substrate/product inhibition. Protein engineering can also be expanded to design biosensors to enable high through-put screening and to customize cell signaling networks. These strategies have successfully engineered pathways for significantly increased productivity of the desired product or in the production of novel compounds. (C) 2013 Elsevier Inc. All rights reserved.

Eriksen, DT↗

Impact of Selected High-Performance Fuel Blends on Three-Way Catalyst Light Off under Synthetic Spark-Ignition Engine-Exhaust Conditions

The U.S. Department of Energy funded Co-Optimization of Fuels and Engines initiative aims to simultaneously develop advanced engines along with high-performance fuels to reduce petroleum consumption. The engine exhaust of spark-ignited light-duty vehicles contains pollutants such as nitrogen oxides, carbon monoxide (CO), and non-methane organic gases. When operated above their “light-off” temperature, three-way catalysts (TWCs) efficiently control the emissions of these pollutants from the vehicle exhaust. However, below the catalyst light-off temperature, during cold start, the TWCs are not effective. Thus, the stringent environmental regulations necessitate cold-start compliance of advanced engines operating on novel fuels for commercialization. Exhaust composition strongly impacts the effectiveness of TWCs. Hence, ensuring that the high-performance fuels under consideration do not have detrimental effects on current emissions control technology is necessary. To mitigate cold-start emissions, a low light-off temperature of the fuel on the TWC is desirable. As real-world fuels are multicomponent blends, we conducted investigations into the light-off behavior of representative fuel mixtures on a three-mode redox-aged commercial TWC under synthetic engine-exhaust conditions. The high-performance fuels in this study included 10–30% volumetric levels of ethanol, isobutanol, diisobutylene, and an aromatic mixture. Each of these high-performance fuel components was mixed into a gasoline surrogate blendstock for oxygenate blending (BOB). Our results showed that aromatics and alkenes in the surrogate BOB inhibit low-temperature reactivity of alkanes, alcohols, and CO on the TWC and dominate the blend light-off behavior. All the high-performance fuel blends had a very similar light-off behavior to the surrogate gasoline BOB, indicating that blending up to 30% (by vol.) of high-performance blendstocks in a gasoline base fuel can potentially reduce greenhouse gas emissions through improved engine efficiency and petroleum displacement without jeopardizing the ability to meet emissions regulations. While some high-performance blendstocks demonstrated lower light-off temperatures than a surrogate gasoline blend, taking advantage of the higher catalytic reactivity of these blendstocks to reduce cold-start emissions would require reducing the aromatic content in petroleum-based market fuels.

33 ADVANCED PROPULSION SYSTEMS↗

Substrate multiplexed protein engineering facilitates promiscuous biocatalytic synthesis

Enzymes with high activity are readily produced through protein engineering, but intentionally and efficiently engineering enzymes for an expanded substrate scope is a contemporary challenge. One approach to address this challenge is Substrate Multiplexed Screening (SUMS), where enzyme activity is measured on competing substrates. SUMS has long been used to rigorously quantitate native enzyme specificity, primarily for in vivo settings. SUMS has more recently found sporadic use as a protein engineering approach but has not been widely adopted by the field, despite its potential utility. Here, we develop principles of how to design and interpret SUMS assays to guide protein engineering. This rich information enables improving activity with multiple substrates simultaneously, identifies enzyme variants with altered scope, and indicates potential mutational hot-spots as sites for further engineering. These advances leverage common laboratory equipment and represent a highly accessible and customizable method for enzyme engineering.

59 BASIC BIOLOGICAL SCIENCES↗

The number of catalytic cycles in an enzyme’s lifetime and why it matters to metabolic engineering

Metabolic engineering uses enzymes as parts to build biosystems for specified tasks. Although a part’s working life and failure modes are key engineering performance indicators, this is not yet so in metabolic engineering because it is not known how long enzymes remain functional in vivo or whether cumulative deterioration (wear-out), sudden random failure, or other causes drive replacement. Consequently, enzymes cannot be engineered to extend life and cut the high energy costs of replacement. Guided by catalyst engineering, we adopted catalytic cycles until replacement (CCR) as a metric for enzyme functional life span in vivo. CCR is the number of catalytic cycles that an enzyme mediates in vivo before failure or replacement, i.e., metabolic flux rate/protein turnover rate. We used estimated fluxes and measured protein turnover rates to calculate CCRs for ~100–200 enzymes each from Lactococcus lactis, yeast, and Arabidopsis. CCRs in these organisms had similar ranges (<10 3 to >10 7 ) but different median values (3–4 × 10 4 in L. lactis and yeast versus 4 × 10 5 in Arabidopsis). In all organisms, enzymes whose substrates, products, or mechanisms can attack reactive amino acid residues had significantly lower median CCR values than other enzymes. Taken with literature on mechanism-based inactivation, the latter finding supports the proposal that 1) random active-site damage by reaction chemistry is an important cause of enzyme failure, and 2) reactive noncatalytic residues in the active-site region are likely contributors to damage susceptibility. Enzyme engineering to raise CCRs and lower replacement costs may thus be both beneficial and feasible.

54 ENVIRONMENTAL SCIENCES↗

Systems Engineering and Analysis in Support of a US Federal Staging Facility for UNF

The US Department of Energy Office of Nuclear Energy (DOE-NE) Office of Spent Fuel and High-Level Waste Disposition is examining a set of system options and conducting supporting analyses to inform the development of an integrated waste management system, which may include one or more federal staging facilities (FSFs) for used nuclear fuel (UNF ) sited using a collaborative siting process. This paper focuses on the ongoing activities in two systems engineering and analysis work areas: (1) data and tools development, validation, and maintenance and (2) systems engineering execution. Within the first work area, the STANDARDS 5.0 UNF data and analysis tool, formerly known as UNF-ST&DARDS, is being developed as a foundational resource to assist in the management of UNF data. It has the key capability to model UNF throughout the entire back end of the fuel cycle. STANDARDS also includes several compatible analysis tools for the time-dependent characterization of UNF and related systems by interfacing with the SCALE code system for nuclear analysis and COBRA-SFS for thermal analysis. Also, within the data and tools area is the Next Generation System Analysis Model (NGSAM), which is an agent-based simulation software tool expressly designed to be capable of modeling the waste management system, including the transportation of UNF to and from a FSF. NGSAM has been developed to enable informed decision-making by providing the capability to analyze various potential system options for the management of UNF and high-level radioactive waste. Finally, in the systems engineering execution area, the team has begun to apply a disciplined systems engineering approach at the system level along with supporting analysis to guide the development of the FSF project requirements (including associated transportation infrastructure). Systems engineering principles and practices and their adaptation/application to design and development activities will ensure that the waste management system is effectively implemented as work proceeds. Other activities include investigating the implications of changes in various assumptions and parameters related to waste management systems, such as UNF acceptance rates, receipt logic, facility capacities and capabilities, use of standardized canisters, and different assumed facility operation start dates. Keywords: federal staging facility (FSF), used nuclear fuel (UNF), integrated waste management (IWM) system, Next Generation System Analysis Model (NGSAM), STANDARDS, systems engineering

Joseph, Robert↗